X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 5.5
Details 9.5 - 10 % PEG 3K, 100 MM KCL, 200 MM MGCL2, 40 MM SODIUM CACODYLATE PH 5.5, 5 MM DTT.

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 183.31 α = 90
b = 183.31 β = 90
c = 111.28 γ = 90
Symmetry
Space Group P 42 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC CCD COMPOUND REFRACTIVE LENSES 2010-10-01
Diffraction Radiation
Monochromator Protocol
DOUBLE CRYSTAL SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON DIAMOND BEAMLINE I04 -- Diamond I04

Data Collection

Overall
Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot
3.27 70.75 99.9 0.08 -- -- 9.2 -- 29895 -- -- 106.14
High Resolution Shell
Resolution (High) Resolution (Low) Percent Possible (All) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All)
3.27 3.35 100.0 0.75 -- 2.8 9.5 --

Refinement

Statistics
Structure Solution Method Refinement High Resolution Refinement Low Resolution Cut-off Sigma (I) Cut-off Sigma (F) Number of Reflections (All) Number of Reflections (Observed) Number of Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work R-Free R-Free Selection Details
MOLECULAR REPLACEMENT 3.269 53.56 -- 1.35 -- 29852 3776 99.88 -- 0.2246 0.2205 0.2813 --
High Resolution Shell
Refinement method Shell Resolution (High) Shell Resolution (Low) # of Reflections (Observed) # of Reflections (R-Free) # of Reflections (R-Work) R-Factor (R-Work) R-Factor (R-Free) R-Factor (R-Free Error) Percent Reflections (Observed)
X Ray Diffraction 3.2694 3.3108 -- 136 1932 0.386 0.4561 -- 100.0
X Ray Diffraction 3.3108 3.3543 -- 142 1952 0.3542 0.3886 -- 100.0
X Ray Diffraction 3.3543 3.4003 -- 140 1935 0.3357 0.4048 -- 100.0
X Ray Diffraction 3.4003 3.4488 -- 132 1920 0.3231 0.4199 -- 100.0
X Ray Diffraction 3.4488 3.5003 -- 141 1928 0.309 0.3462 -- 100.0
X Ray Diffraction 3.5003 3.555 -- 138 1930 0.2925 0.3833 -- 100.0
X Ray Diffraction 3.555 3.6133 -- 135 1941 0.301 0.3811 -- 100.0
X Ray Diffraction 3.6133 3.6756 -- 137 1941 0.2923 0.4127 -- 100.0
X Ray Diffraction 3.6756 3.7424 -- 138 1931 0.2523 0.2816 -- 100.0
X Ray Diffraction 3.7424 3.8143 -- 142 1936 0.2373 0.3365 -- 100.0
X Ray Diffraction 3.8143 3.8922 -- 139 1931 0.2372 0.3258 -- 100.0
X Ray Diffraction 3.8922 3.9768 -- 144 1941 0.2345 0.3114 -- 100.0
X Ray Diffraction 3.9768 4.0693 -- 137 1916 0.2136 0.2713 -- 100.0
X Ray Diffraction 4.0693 4.171 -- 140 1951 0.197 0.26 -- 100.0
X Ray Diffraction 4.171 4.2837 -- 141 1944 0.2223 0.2778 -- 100.0
X Ray Diffraction 4.2837 4.4097 -- 137 1906 0.2168 0.2915 -- 100.0
X Ray Diffraction 4.4097 4.552 -- 141 1949 0.2064 0.3113 -- 100.0
X Ray Diffraction 4.552 4.7146 -- 141 1942 0.2043 0.2509 -- 100.0
X Ray Diffraction 4.7146 4.9032 -- 140 1906 0.2113 0.3168 -- 100.0
X Ray Diffraction 4.9032 5.1262 -- 140 1947 0.2264 0.2865 -- 100.0
X Ray Diffraction 5.1262 5.3962 -- 144 1938 0.2476 0.338 -- 100.0
X Ray Diffraction 5.3962 5.7339 -- 143 1916 0.2648 0.3227 -- 100.0
X Ray Diffraction 5.7339 6.1761 -- 142 1947 0.2273 0.3426 -- 100.0
X Ray Diffraction 6.1761 6.7965 -- 142 1930 0.2138 0.2419 -- 100.0
X Ray Diffraction 6.7965 7.7774 -- 137 1943 0.1676 0.2184 -- 100.0
X Ray Diffraction 7.7774 9.7889 -- 144 1915 0.138 0.1756 -- 99.0
X Ray Diffraction 9.7889 53.5673 -- 143 1923 0.1944 0.2251 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 103.54
Anisotropic B[1][1] -15.74
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -15.74
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 31.4801
RMS Deviations
Key Refinement Restraint Deviation
f_dihedral_angle_d 20.198
f_chiral_restr 0.083
f_angle_d 1.279
f_bond_d 0.01
f_plane_restr 0.004
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 11807
Nucleic Acid Atoms 0
Heterogen Atoms 5
Solvent Atoms 8

Software

Software
Software Name Purpose
Coot model building
xia2 data reduction
xia2 data scaling
SCALA data scaling
SnB phasing
autoSHARP phasing
PHENIX phasing version: AUTOBUILD
Coot phasing
PHENIX phasing
PHASER phasing
PHENIX refinement